# Assembly name: mPerGos1.hap2 # Organism name: Peromyscus gossypinus allapaticola (cotton mouse) # Isolate: mPerGos1 # Sex: male # Taxid: 3701075 # BioSample: SAMN57188880 # BioProject: PRJNA1455830 # Submitter: Vertebrate Genomes Project # Date: 2026-06-03 # Assembly type: haploid (haplotype 2) # Release type: major # Assembly level: Chromosome # Genome representation: full # WGS project: JBXXQD01 # Assembly method: Hifiasm + Hi-C phasing v. 0.19.8 + galaxy1; yahs v. 1.2a.2 + galaxy1 # Expected final version: No # Genome coverage: 42.95x # Sequencing technology: PacBio Revio HiFi; Arima Hi-C v2 # GenBank assembly accession: GCA_057877455.1 # Linked assembly: GCA_057877385.1 (haplotype 1) # ## Assembly-Unit names: ## Primary Assembly # # Ordered by chromosome/plasmid; the chromosomes/plasmids are followed by # unlocalized scaffolds. # Unplaced scaffolds are listed at the end. # RefSeq is equal or derived from GenBank object. # # Sequence-Name Sequence-Role Assigned-Molecule Assigned-Molecule-Location/Type GenBank-Accn Relationship RefSeq-Accn Assembly-Unit Sequence-Length UCSC-style-name SUPER_1 assembled-molecule 1 Chromosome CM174858.1 <> na Primary Assembly 218343594 na SUPER_2 assembled-molecule 2 Chromosome CM174859.1 <> na Primary Assembly 175655016 na SUPER_3 assembled-molecule 3 Chromosome CM174860.1 <> na Primary Assembly 170713149 na SUPER_4 assembled-molecule 4 Chromosome CM174861.1 <> na Primary Assembly 158718183 na SUPER_5 assembled-molecule 5 Chromosome CM174862.1 <> na Primary Assembly 145828620 na SUPER_6 assembled-molecule 6 Chromosome CM174863.1 <> na Primary Assembly 142335004 na SUPER_7 assembled-molecule 7 Chromosome CM174864.1 <> na Primary Assembly 123056187 na SUPER_8 assembled-molecule 8 Chromosome CM174865.1 <> na Primary Assembly 122618709 na SUPER_9 assembled-molecule 9 Chromosome CM174866.1 <> na Primary Assembly 114621353 na SUPER_10 assembled-molecule 10 Chromosome CM174867.1 <> na Primary Assembly 103462835 na SUPER_11 assembled-molecule 11 Chromosome CM174868.1 <> na Primary Assembly 101478386 na SUPER_12 assembled-molecule 12 Chromosome CM174869.1 <> na Primary Assembly 95780348 na SUPER_13 assembled-molecule 13 Chromosome CM174870.1 <> na Primary Assembly 87297193 na SUPER_14 assembled-molecule 14 Chromosome CM174871.1 <> na Primary Assembly 82856944 na SUPER_15 assembled-molecule 15 Chromosome CM174872.1 <> na Primary Assembly 84628657 na SUPER_16 assembled-molecule 16 Chromosome CM174873.1 <> na Primary Assembly 74276688 na SUPER_17 assembled-molecule 17 Chromosome CM174874.1 <> na Primary Assembly 74199716 na SUPER_18 assembled-molecule 18 Chromosome CM174875.1 <> na Primary Assembly 69316513 na SUPER_19 assembled-molecule 19 Chromosome CM174876.1 <> na Primary Assembly 70442277 na SUPER_20 assembled-molecule 20 Chromosome CM174877.1 <> na Primary Assembly 68457204 na SUPER_21 assembled-molecule 21 Chromosome CM174878.1 <> na Primary Assembly 64362304 na SUPER_22 assembled-molecule 22 Chromosome CM174879.1 <> na Primary Assembly 61234533 na SUPER_23 assembled-molecule 23 Chromosome CM174880.1 <> na Primary Assembly 58008023 na SUPER_1_unloc_1 unlocalized-scaffold 1 Chromosome JBXXQD010000061.1 <> na Primary Assembly 188558 na SUPER_6_unloc_1 unlocalized-scaffold 6 Chromosome JBXXQD010000105.1 <> na Primary Assembly 66689 na SUPER_6_unloc_2 unlocalized-scaffold 6 Chromosome JBXXQD010000143.1 <> na Primary Assembly 42379 na SUPER_6_unloc_3 unlocalized-scaffold 6 Chromosome JBXXQD010000174.1 <> na Primary Assembly 28608 na SUPER_9_unloc_1 unlocalized-scaffold 9 Chromosome JBXXQD010000113.1 <> na Primary Assembly 59512 na SUPER_10_unloc_2 unlocalized-scaffold 10 Chromosome JBXXQD010000083.1 <> na Primary Assembly 101470 na SUPER_10_unloc_1 unlocalized-scaffold 10 Chromosome JBXXQD010000092.1 <> na Primary Assembly 82083 na SUPER_12_unloc_1 unlocalized-scaffold 12 Chromosome JBXXQD010000045.1 <> na Primary Assembly 435685 na SUPER_22_unloc_1 unlocalized-scaffold 22 Chromosome JBXXQD010000033.1 <> na Primary Assembly 1996435 na SUPER_23_unloc_2 unlocalized-scaffold 23 Chromosome JBXXQD010000039.1 <> na Primary Assembly 955498 na SUPER_23_unloc_1 unlocalized-scaffold 23 Chromosome JBXXQD010000044.1 <> na Primary Assembly 600383 na SUPER_23_unloc_3 unlocalized-scaffold 23 Chromosome JBXXQD010000046.1 <> na Primary Assembly 378418 na Scaffold_92 unplaced-scaffold na na JBXXQD010000024.1 <> na Primary Assembly 5159421 na Scaffold_94 unplaced-scaffold na na JBXXQD010000025.1 <> na Primary Assembly 4476179 na Scaffold_67 unplaced-scaffold na na JBXXQD010000026.1 <> na Primary Assembly 4244546 na Scaffold_58 unplaced-scaffold na na JBXXQD010000027.1 <> na Primary Assembly 4169335 na Scaffold_97 unplaced-scaffold na na JBXXQD010000028.1 <> na Primary Assembly 4137769 na Scaffold_98 unplaced-scaffold na na JBXXQD010000029.1 <> na Primary Assembly 4095204 na Scaffold_99 unplaced-scaffold na na JBXXQD010000030.1 <> na Primary Assembly 3201721 na Scaffold_102 unplaced-scaffold na na JBXXQD010000031.1 <> na Primary Assembly 3107620 na Scaffold_103 unplaced-scaffold na na JBXXQD010000032.1 <> na Primary Assembly 2936672 na Scaffold_105 unplaced-scaffold na na JBXXQD010000034.1 <> na Primary Assembly 1748573 na Scaffold_106 unplaced-scaffold na na JBXXQD010000035.1 <> na Primary Assembly 1622361 na Scaffold_107 unplaced-scaffold na na JBXXQD010000036.1 <> na Primary Assembly 1528261 na Scaffold_70 unplaced-scaffold na na JBXXQD010000037.1 <> na Primary Assembly 1416643 na Scaffold_111 unplaced-scaffold na na JBXXQD010000038.1 <> na Primary Assembly 1286123 na Scaffold_117 unplaced-scaffold na na JBXXQD010000040.1 <> na Primary Assembly 729737 na Scaffold_118 unplaced-scaffold na na JBXXQD010000041.1 <> na Primary Assembly 699104 na Scaffold_121 unplaced-scaffold na na JBXXQD010000042.1 <> na Primary Assembly 663812 na Scaffold_123 unplaced-scaffold na na JBXXQD010000043.1 <> na Primary Assembly 621591 na Scaffold_138 unplaced-scaffold na na JBXXQD010000047.1 <> na Primary Assembly 334973 na Scaffold_140 unplaced-scaffold na na JBXXQD010000048.1 <> na Primary Assembly 320903 na Scaffold_141 unplaced-scaffold na na JBXXQD010000049.1 <> na Primary Assembly 319075 na Scaffold_142 unplaced-scaffold na na JBXXQD010000050.1 <> na Primary Assembly 311658 na Scaffold_143 unplaced-scaffold na na JBXXQD010000051.1 <> na Primary Assembly 308126 na Scaffold_147 unplaced-scaffold na na JBXXQD010000052.1 <> na Primary Assembly 302222 na Scaffold_149 unplaced-scaffold na na JBXXQD010000053.1 <> na Primary Assembly 295482 na Scaffold_152 unplaced-scaffold na na JBXXQD010000054.1 <> na Primary Assembly 273489 na Scaffold_155 unplaced-scaffold na na JBXXQD010000055.1 <> na Primary Assembly 258316 na Scaffold_156 unplaced-scaffold na na JBXXQD010000056.1 <> na Primary Assembly 257859 na Scaffold_169 unplaced-scaffold na na JBXXQD010000057.1 <> na Primary Assembly 213827 na Scaffold_171 unplaced-scaffold na na JBXXQD010000058.1 <> na Primary Assembly 204185 na Scaffold_68 unplaced-scaffold na na JBXXQD010000059.1 <> na Primary Assembly 203932 na Scaffold_182 unplaced-scaffold na na JBXXQD010000060.1 <> na Primary Assembly 194736 na Scaffold_188 unplaced-scaffold na na JBXXQD010000062.1 <> na Primary Assembly 185495 na Scaffold_79 unplaced-scaffold na na JBXXQD010000063.1 <> na Primary Assembly 163977 na Scaffold_52 unplaced-scaffold na na JBXXQD010000064.1 <> na Primary Assembly 162027 na Scaffold_75 unplaced-scaffold na na JBXXQD010000065.1 <> na Primary Assembly 161938 na Scaffold_201 unplaced-scaffold na na JBXXQD010000066.1 <> na Primary Assembly 160727 na Scaffold_202 unplaced-scaffold na na JBXXQD010000067.1 <> na Primary Assembly 157114 na Scaffold_55 unplaced-scaffold na na JBXXQD010000068.1 <> na Primary Assembly 150955 na Scaffold_66 unplaced-scaffold na na JBXXQD010000069.1 <> na Primary Assembly 150716 na Scaffold_53 unplaced-scaffold na na JBXXQD010000070.1 <> na Primary Assembly 149647 na Scaffold_56 unplaced-scaffold na na JBXXQD010000071.1 <> na Primary Assembly 148401 na Scaffold_51 unplaced-scaffold na na JBXXQD010000072.1 <> na Primary Assembly 143039 na Scaffold_49 unplaced-scaffold na na JBXXQD010000073.1 <> na Primary Assembly 140642 na Scaffold_913 unplaced-scaffold na na JBXXQD010000074.1 <> na Primary Assembly 137075 na Scaffold_206 unplaced-scaffold na na JBXXQD010000075.1 <> na Primary Assembly 136735 na Scaffold_915 unplaced-scaffold na na JBXXQD010000076.1 <> na Primary Assembly 129070 na Scaffold_80 unplaced-scaffold na na JBXXQD010000077.1 <> na Primary Assembly 121276 na Scaffold_74 unplaced-scaffold na na JBXXQD010000078.1 <> na Primary Assembly 114697 na Scaffold_221 unplaced-scaffold na na JBXXQD010000079.1 <> na Primary Assembly 112015 na Scaffold_231 unplaced-scaffold na na JBXXQD010000080.1 <> na Primary Assembly 107954 na Scaffold_234 unplaced-scaffold na na JBXXQD010000081.1 <> na Primary Assembly 105873 na Scaffold_238 unplaced-scaffold na na JBXXQD010000082.1 <> na Primary Assembly 103192 na Scaffold_240 unplaced-scaffold na na JBXXQD010000084.1 <> na Primary Assembly 101140 na Scaffold_243 unplaced-scaffold na na JBXXQD010000085.1 <> na Primary Assembly 97527 na Scaffold_244 unplaced-scaffold na na JBXXQD010000086.1 <> na Primary Assembly 97431 na Scaffold_926 unplaced-scaffold na na JBXXQD010000087.1 <> na Primary Assembly 93681 na Scaffold_249 unplaced-scaffold na na JBXXQD010000088.1 <> na Primary Assembly 92998 na Scaffold_928 unplaced-scaffold na na JBXXQD010000089.1 <> na Primary Assembly 92481 na Scaffold_929 unplaced-scaffold na na JBXXQD010000090.1 <> na Primary Assembly 87983 na Scaffold_253 unplaced-scaffold na na JBXXQD010000091.1 <> na Primary Assembly 87954 na Scaffold_932 unplaced-scaffold na na JBXXQD010000093.1 <> na Primary Assembly 78877 na Scaffold_57 unplaced-scaffold na na JBXXQD010000094.1 <> na Primary Assembly 78849 na Scaffold_934 unplaced-scaffold na na JBXXQD010000095.1 <> na Primary Assembly 76616 na Scaffold_263 unplaced-scaffold na na JBXXQD010000096.1 <> na Primary Assembly 76144 na Scaffold_264 unplaced-scaffold na na JBXXQD010000097.1 <> na Primary Assembly 74918 na Scaffold_937 unplaced-scaffold na na JBXXQD010000098.1 <> na Primary Assembly 74684 na Scaffold_938 unplaced-scaffold na na JBXXQD010000099.1 <> na Primary Assembly 74514 na Scaffold_939 unplaced-scaffold na na JBXXQD010000100.1 <> na Primary Assembly 70365 na Scaffold_940 unplaced-scaffold na na JBXXQD010000101.1 <> na Primary Assembly 69612 na Scaffold_941 unplaced-scaffold na na JBXXQD010000102.1 <> na Primary Assembly 69084 na Scaffold_271 unplaced-scaffold na na JBXXQD010000103.1 <> na Primary Assembly 67956 na Scaffold_273 unplaced-scaffold na na JBXXQD010000104.1 <> na Primary Assembly 67008 na Scaffold_945 unplaced-scaffold na na JBXXQD010000106.1 <> na Primary Assembly 66326 na Scaffold_276 unplaced-scaffold na na JBXXQD010000107.1 <> na Primary Assembly 65462 na Scaffold_947 unplaced-scaffold na na JBXXQD010000108.1 <> na Primary Assembly 64609 na Scaffold_948 unplaced-scaffold na na JBXXQD010000109.1 <> na Primary Assembly 63232 na Scaffold_949 unplaced-scaffold na na JBXXQD010000110.1 <> na Primary Assembly 62835 na Scaffold_280 unplaced-scaffold na na JBXXQD010000111.1 <> na Primary Assembly 62752 na Scaffold_952 unplaced-scaffold na na JBXXQD010000112.1 <> na Primary Assembly 62166 na Scaffold_955 unplaced-scaffold na na JBXXQD010000114.1 <> na Primary Assembly 58772 na Scaffold_283 unplaced-scaffold na na JBXXQD010000115.1 <> na Primary Assembly 58336 na Scaffold_957 unplaced-scaffold na na JBXXQD010000116.1 <> na Primary Assembly 56169 na Scaffold_958 unplaced-scaffold na na JBXXQD010000117.1 <> na Primary Assembly 55753 na Scaffold_959 unplaced-scaffold na na JBXXQD010000118.1 <> na Primary Assembly 55614 na Scaffold_78 unplaced-scaffold na na JBXXQD010000119.1 <> na Primary Assembly 55562 na Scaffold_961 unplaced-scaffold na na JBXXQD010000120.1 <> na Primary Assembly 55538 na Scaffold_962 unplaced-scaffold na na JBXXQD010000121.1 <> na Primary Assembly 54967 na Scaffold_963 unplaced-scaffold na na JBXXQD010000122.1 <> na Primary Assembly 54923 na Scaffold_964 unplaced-scaffold na na JBXXQD010000123.1 <> na Primary Assembly 54335 na Scaffold_69 unplaced-scaffold na na JBXXQD010000124.1 <> na Primary Assembly 53789 na Scaffold_966 unplaced-scaffold na na JBXXQD010000125.1 <> na Primary Assembly 53013 na Scaffold_967 unplaced-scaffold na na JBXXQD010000126.1 <> na Primary Assembly 52753 na Scaffold_968 unplaced-scaffold na na JBXXQD010000127.1 <> na Primary Assembly 51587 na Scaffold_969 unplaced-scaffold na na JBXXQD010000128.1 <> na Primary Assembly 51257 na Scaffold_970 unplaced-scaffold na na JBXXQD010000129.1 <> na Primary Assembly 50897 na Scaffold_971 unplaced-scaffold na na JBXXQD010000130.1 <> na Primary Assembly 50067 na Scaffold_972 unplaced-scaffold na na JBXXQD010000131.1 <> na Primary Assembly 49808 na Scaffold_973 unplaced-scaffold na na JBXXQD010000132.1 <> na Primary Assembly 48722 na Scaffold_293 unplaced-scaffold na na JBXXQD010000133.1 <> na Primary Assembly 48291 na Scaffold_975 unplaced-scaffold na na JBXXQD010000134.1 <> na Primary Assembly 47144 na Scaffold_976 unplaced-scaffold na na JBXXQD010000135.1 <> na Primary Assembly 46965 na Scaffold_295 unplaced-scaffold na na JBXXQD010000136.1 <> na Primary Assembly 46487 na Scaffold_978 unplaced-scaffold na na JBXXQD010000137.1 <> na Primary Assembly 46200 na Scaffold_979 unplaced-scaffold na na JBXXQD010000138.1 <> na Primary Assembly 46170 na Scaffold_54 unplaced-scaffold na na JBXXQD010000139.1 <> na Primary Assembly 46041 na Scaffold_982 unplaced-scaffold na na JBXXQD010000140.1 <> na Primary Assembly 44075 na Scaffold_983 unplaced-scaffold na na JBXXQD010000141.1 <> na Primary Assembly 42577 na Scaffold_984 unplaced-scaffold na na JBXXQD010000142.1 <> na Primary Assembly 42454 na Scaffold_298 unplaced-scaffold na na JBXXQD010000144.1 <> na Primary Assembly 40800 na Scaffold_987 unplaced-scaffold na na JBXXQD010000145.1 <> na Primary Assembly 40675 na Scaffold_989 unplaced-scaffold na na JBXXQD010000146.1 <> na Primary Assembly 40327 na Scaffold_990 unplaced-scaffold na na JBXXQD010000147.1 <> na Primary Assembly 39642 na Scaffold_991 unplaced-scaffold na na JBXXQD010000148.1 <> na Primary Assembly 39478 na Scaffold_992 unplaced-scaffold na na JBXXQD010000149.1 <> na Primary Assembly 39466 na Scaffold_993 unplaced-scaffold na na JBXXQD010000150.1 <> na Primary Assembly 39403 na Scaffold_301 unplaced-scaffold na na JBXXQD010000151.1 <> na Primary Assembly 39205 na Scaffold_995 unplaced-scaffold na na JBXXQD010000152.1 <> na Primary Assembly 38954 na Scaffold_996 unplaced-scaffold na na JBXXQD010000153.1 <> na Primary Assembly 36455 na Scaffold_997 unplaced-scaffold na na JBXXQD010000154.1 <> na Primary Assembly 36328 na Scaffold_998 unplaced-scaffold na na JBXXQD010000155.1 <> na Primary Assembly 36284 na Scaffold_999 unplaced-scaffold na na JBXXQD010000156.1 <> na Primary Assembly 35687 na Scaffold_306 unplaced-scaffold na na JBXXQD010000157.1 <> na Primary Assembly 35157 na Scaffold_1001 unplaced-scaffold na na JBXXQD010000158.1 <> na Primary Assembly 35145 na Scaffold_1002 unplaced-scaffold na na JBXXQD010000159.1 <> na Primary Assembly 35093 na Scaffold_1003 unplaced-scaffold na na JBXXQD010000160.1 <> na Primary Assembly 34371 na Scaffold_1004 unplaced-scaffold na na JBXXQD010000161.1 <> na Primary Assembly 33567 na Scaffold_1005 unplaced-scaffold na na JBXXQD010000162.1 <> na Primary Assembly 33552 na Scaffold_1007 unplaced-scaffold na na JBXXQD010000163.1 <> na Primary Assembly 32935 na Scaffold_1008 unplaced-scaffold na na JBXXQD010000164.1 <> na Primary Assembly 32873 na Scaffold_1009 unplaced-scaffold na na JBXXQD010000165.1 <> na Primary Assembly 31984 na Scaffold_309 unplaced-scaffold na na JBXXQD010000166.1 <> na Primary Assembly 31710 na Scaffold_1011 unplaced-scaffold na na JBXXQD010000167.1 <> na Primary Assembly 31191 na Scaffold_310 unplaced-scaffold na na JBXXQD010000168.1 <> na Primary Assembly 30865 na Scaffold_1013 unplaced-scaffold na na JBXXQD010000169.1 <> na Primary Assembly 30675 na Scaffold_1014 unplaced-scaffold na na JBXXQD010000170.1 <> na Primary Assembly 30270 na Scaffold_1015 unplaced-scaffold na na JBXXQD010000171.1 <> na Primary Assembly 29915 na Scaffold_1016 unplaced-scaffold na na JBXXQD010000172.1 <> na Primary Assembly 29001 na Scaffold_1017 unplaced-scaffold na na JBXXQD010000173.1 <> na Primary Assembly 28849 na Scaffold_1019 unplaced-scaffold na na JBXXQD010000175.1 <> na Primary Assembly 28489 na Scaffold_1020 unplaced-scaffold na na JBXXQD010000176.1 <> na Primary Assembly 28211 na Scaffold_1021 unplaced-scaffold na na JBXXQD010000177.1 <> na Primary Assembly 28108 na Scaffold_1022 unplaced-scaffold na na JBXXQD010000178.1 <> na Primary Assembly 27628 na Scaffold_1023 unplaced-scaffold na na JBXXQD010000179.1 <> na Primary Assembly 27148 na Scaffold_1024 unplaced-scaffold na na JBXXQD010000180.1 <> na Primary Assembly 26644 na Scaffold_1025 unplaced-scaffold na na JBXXQD010000181.1 <> na Primary Assembly 26205 na Scaffold_50 unplaced-scaffold na na JBXXQD010000182.1 <> na Primary Assembly 25915 na Scaffold_1027 unplaced-scaffold na na JBXXQD010000183.1 <> na Primary Assembly 25372 na Scaffold_1028 unplaced-scaffold na na JBXXQD010000184.1 <> na Primary Assembly 24436 na Scaffold_1029 unplaced-scaffold na na JBXXQD010000185.1 <> na Primary Assembly 24337 na Scaffold_1030 unplaced-scaffold na na JBXXQD010000186.1 <> na Primary Assembly 22977 na Scaffold_1031 unplaced-scaffold na na JBXXQD010000187.1 <> na Primary Assembly 22902 na Scaffold_1032 unplaced-scaffold na na JBXXQD010000188.1 <> na Primary Assembly 22228 na Scaffold_1033 unplaced-scaffold na na JBXXQD010000189.1 <> na Primary Assembly 22143 na Scaffold_1034 unplaced-scaffold na na JBXXQD010000190.1 <> na Primary Assembly 21523 na Scaffold_1035 unplaced-scaffold na na JBXXQD010000191.1 <> na Primary Assembly 20943 na Scaffold_1036 unplaced-scaffold na na JBXXQD010000192.1 <> na Primary Assembly 20340 na Scaffold_1037 unplaced-scaffold na na JBXXQD010000193.1 <> na Primary Assembly 20226 na Scaffold_1038 unplaced-scaffold na na JBXXQD010000194.1 <> na Primary Assembly 20033 na Scaffold_1039 unplaced-scaffold na na JBXXQD010000195.1 <> na Primary Assembly 19986 na Scaffold_1040 unplaced-scaffold na na JBXXQD010000196.1 <> na Primary Assembly 19345 na Scaffold_320 unplaced-scaffold na na JBXXQD010000197.1 <> na Primary Assembly 14211 na